Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 134 of 207
Found at i:41049329 original size:94 final size:94
Alignment explanation
Indices: 41049144--41049373 Score: 227
Period size: 94 Copynumber: 2.4 Consensus size: 94
41049134 TAATTTATTA
* * *
41049144 TAAATTTGTAATTAATTTACTCAAGTAACCCTAAACCTTAATTTATTTAATTTTTCCTTAAAAAT
1 TAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTCCTTAAAAAT
** * * * **
41049209 CTTTAACTCTAAACCCTAATTTAATTTT-
66 AATAAACTCGAAACACTAATCCAATTTTG
* * * *
41049237 TAAATTTTTTAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAA
1 TAAA-TTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTCCTT-AAAA
41049302 ATAATAAACAT-GAAA-ACTAATCCAATTTTG
64 ATAATAAAC-TCGAAACACTAATCCAATTTTG
* * *
41049332 AAAAATTTATAATTAATTTAATTGAA--AACCCTAAACCCTAAT
1 -TAAATTTATAATTAATTT-ACTCAAGTAACCCTAAACCCTAAT
41049374 CCCTTATTTA
Statistics
Matches: 113, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
93 4 0.04
94 76 0.67
95 25 0.22
96 8 0.07
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (94 bp):
TAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTCCTTAAAAAT
AATAAACTCGAAACACTAATCCAATTTTG
Found at i:41062263 original size:18 final size:18
Alignment explanation
Indices: 41062240--41062274 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
41062230 TAGAAAATAC
41062240 TTTTAT-ATTAATATTTAT
1 TTTTATAATTAA-ATTTAT
41062258 TTTTATAATTAAATTTA
1 TTTTATAATTAAATTTA
41062275 ATATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATAATTAAATTTAT
Found at i:41063196 original size:21 final size:21
Alignment explanation
Indices: 41063172--41063217 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
41063162 TACAAATGTG
*
41063172 TTAATATCTA-ATTAAAGATAT
1 TTAATAGCTATATTAAA-ATAT
*
41063193 TTAATAGCTATATTTAAATAT
1 TTAATAGCTATATTAAAATAT
41063214 TTAA
1 TTAA
41063218 AATATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAATAGCTATATTAAAATAT
Found at i:41063683 original size:22 final size:23
Alignment explanation
Indices: 41063658--41063702 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
41063648 TCCTTAGATA
41063658 TTAATT-TTTTAAGTAATAATTT
1 TTAATTGTTTTAAGTAATAATTT
**
41063680 TTAATTGTTTTATTTAATAATTT
1 TTAATTGTTTTAAGTAATAATTT
41063703 CATATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTAATTGTTTTAAGTAATAATTT
Found at i:41069791 original size:13 final size:13
Alignment explanation
Indices: 41069750--41069793 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
41069740 TGTCAAATAA
41069750 AAATAATTAAGA-
1 AAATAATTAAGAT
* *
41069762 AAGTAATTAAAAT
1 AAATAATTAAGAT
*
41069775 AAATAACTAAGAT
1 AAATAATTAAGAT
41069788 AAATAA
1 AAATAA
41069794 AATAGAACAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (13 bp):
AAATAATTAAGAT
Found at i:41072919 original size:67 final size:68
Alignment explanation
Indices: 41072829--41072964 Score: 213
Period size: 67 Copynumber: 2.0 Consensus size: 68
41072819 ACAACATGCC
*
41072829 AACAACAATTTAAGCACTCCAATACCTCATCCT-ACCTTAAATCAATACTTTATTACTATAAGCT
1 AACAACAATTTAAGCACTCCAATACCTCAT-CTAACCTTAAATCAATAATTTATTACTATAAGCT
41072893 AATT
65 AATT
* * *
41072897 AACATCAATTTAA-CACTCCAATACTTCATGTAACCTTAAATCAATAATTTATTACTATAAGCTA
1 AACAACAATTTAAGCACTCCAATACCTCATCTAACCTTAAATCAATAATTTATTACTATAAGCTA
41072961 ATT
66 ATT
41072964 A
1 A
41072965 CCTATTGTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
66 1 0.02
67 50 0.79
68 12 0.19
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (68 bp):
AACAACAATTTAAGCACTCCAATACCTCATCTAACCTTAAATCAATAATTTATTACTATAAGCTA
ATT
Found at i:41073312 original size:9 final size:9
Alignment explanation
Indices: 41073293--41073326 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
41073283 AAATGATTTA
41073293 TTTTTAA-T
1 TTTTTAATT
41073301 TTTTTAATT
1 TTTTTAATT
41073310 TTTTTAATT
1 TTTTTAATT
41073319 TTTATTAA
1 TTT-TTAA
41073327 AAATAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.29
9 13 0.54
10 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTAATT
Found at i:41091691 original size:50 final size:50
Alignment explanation
Indices: 41091567--41091813 Score: 212
Period size: 50 Copynumber: 4.8 Consensus size: 50
41091557 TATAATAACA
* * ** * * *
41091567 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAT-CGG
* * * **
41091616 TACCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * * * *
41091666 TGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * *
41091716 TGCCAACGCCATGTCCCAAACATGGTCTTACAT-AGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGA-GACCTCTCAT-A--TC---GG
*
41091772 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
41091814 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 79 0.50
53 1 0.01
56 38 0.24
57 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:41093815 original size:25 final size:25
Alignment explanation
Indices: 41093787--41093839 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
41093777 AGTTGCCTGA
* *
41093787 AAAGCCTATGTGGTGTATTATTTGG
1 AAAGCCTACGTGGAGTATTATTTGG
41093812 AAAGCCTACGTGGAGTATTATTTGG
1 AAAGCCTACGTGGAGTATTATTTGG
41093837 AAA
1 AAA
41093840 ACCTTAGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.34
Consensus pattern (25 bp):
AAAGCCTACGTGGAGTATTATTTGG
Found at i:41093849 original size:25 final size:25
Alignment explanation
Indices: 41093785--41093843 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
41093775 TGAGTTGCCT
* *
41093785 GAAAAGCCTATGTGGTGTATTATTTG
1 GAAAA-CCTACGTGGAGTATTATTTG
*
41093811 GAAAGCCTACGTGGAGTATTATTTG
1 GAAAACCTACGTGGAGTATTATTTG
41093836 GAAAACCT
1 GAAAACCT
41093844 TAGTGGCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (25 bp):
GAAAACCTACGTGGAGTATTATTTG
Found at i:41099567 original size:20 final size:22
Alignment explanation
Indices: 41099515--41099567 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
41099505 GCAGAAGCTA
41099515 TGTCACGACACAAGGGGTCTTG
1 TGTCACGACACAAGGGGTCTTG
****
41099537 TGTTGTAACACAA-GGGTC-TG
1 TGTCACGACACAAGGGGTCTTG
41099557 TGTCACGACAC
1 TGTCACGACAC
41099568 GTACATCCTA
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 9 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTCACGACACAAGGGGTCTTG
Found at i:41104004 original size:40 final size:41
Alignment explanation
Indices: 41103869--41104054 Score: 245
Period size: 41 Copynumber: 4.6 Consensus size: 41
41103859 TACTCGAATG
*
41103869 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
41103910 ATATCCGGGCTAAGTCCCGAAGG-ATTTTGTGTTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAAGCGACT
* *
41103951 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
41103991 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
41104031 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
41104055 CTTGTGCGAG
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 62 0.48
41 64 0.50
42 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:41105546 original size:45 final size:45
Alignment explanation
Indices: 41105497--41105672 Score: 196
Period size: 45 Copynumber: 3.9 Consensus size: 45
41105487 ATGCTTTCAT
* *
41105497 ATGATGCCATAACATCTTTTAGCTATGGTCTTACTCATTTTAACC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
* * * * **
41105542 ATGATGCCGTATCTTCCTTCAATTATGGTCTTACTCATTTT-ATC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
*
41105586 ATGACATG--ATAACATCTTTCAGCTATGGTCTTACTCATTTTTATC
1 ATG--ATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
* * * *
41105631 GTGAGGCCATAGCATCTTTTAGCTATGGTCTTACTCATTTTA
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTA
41105673 CGTGTATAGC
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
43 2 0.02
44 32 0.30
45 70 0.65
46 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
Found at i:41105658 original size:89 final size:89
Alignment explanation
Indices: 41105505--41105672 Score: 228
Period size: 89 Copynumber: 1.9 Consensus size: 89
41105495 ATATGATGCC
* * * * * *
41105505 ATAACATCTTTTAGCTATGGTCTTACTCATTTTAACCATGATGCCGTATCTTCCTTCAATTATGG
1 ATAACATCTTTCAGCTATGGTCTTACTCATTTTAACCATGAGGCCATAGCATCCTTCAACTATGG
41105570 TCTTACTCATTTTATCATGACATG
66 TCTTACTCATTTTATCATGACATG
* * * * * *
41105594 ATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCGTGAGGCCATAGCATCTTTTAGCTATGG
1 ATAACATCTTTCAGCTATGGTCTTACTCATTTTAACCATGAGGCCATAGCATCCTTCAACTATGG
41105659 TCTTACTCATTTTA
66 TCTTACTCATTTTA
41105673 CGTGTATAGC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (89 bp):
ATAACATCTTTCAGCTATGGTCTTACTCATTTTAACCATGAGGCCATAGCATCCTTCAACTATGG
TCTTACTCATTTTATCATGACATG
Found at i:41108532 original size:13 final size:13
Alignment explanation
Indices: 41108514--41108542 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
41108504 CATTGAGTAT
41108514 CAATGTCAATGGA
1 CAATGTCAATGGA
41108527 CAATGTCAATGGA
1 CAATGTCAATGGA
41108540 CAA
1 CAA
41108543 AAATTAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (13 bp):
CAATGTCAATGGA
Found at i:41114128 original size:6 final size:7
Alignment explanation
Indices: 41114113--41114137 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41114103 CATTAATTAA
41114113 TTTTATT
1 TTTTATT
41114120 TTTTATT
1 TTTTATT
41114127 TTTTATT
1 TTTTATT
41114134 TTTT
1 TTTT
41114138 CATAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:41123762 original size:27 final size:28
Alignment explanation
Indices: 41123715--41123768 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
41123705 CGAAATTCAT
*
41123715 ACTTTAATTATAAAATAATT-AATTTTC
1 ACTTAAATTATAAAATAATTAAATTTTC
*
41123742 ACTTAAATTATCAACAT-ATTAAATTTT
1 ACTTAAATTAT-AAAATAATTAAATTTT
41123769 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.46
Consensus pattern (28 bp):
ACTTAAATTATAAAATAATTAAATTTTC
Found at i:41130142 original size:20 final size:20
Alignment explanation
Indices: 41130119--41130157 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41130109 ATAACTACCA
*
41130119 TTCACCATCGATCACTGCCG
1 TTCACCATCAATCACTGCCG
*
41130139 TTCACCGTCAATCACTGCC
1 TTCACCATCAATCACTGCC
41130158 AATCACCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.41, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCACCATCAATCACTGCCG
Found at i:41130172 original size:20 final size:20
Alignment explanation
Indices: 41130120--41130164 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
41130110 TAACTACCAT
* **
41130120 TCACCATCGATCACTGCCGT
1 TCACCGTCGATCACTGCCAA
*
41130140 TCACCGTCAATCACTGCCAA
1 TCACCGTCGATCACTGCCAA
41130160 TCACC
1 TCACC
41130165 TCCGATCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.42, G:0.11, T:0.22
Consensus pattern (20 bp):
TCACCGTCGATCACTGCCAA
Found at i:41132274 original size:88 final size:89
Alignment explanation
Indices: 41132004--41132315 Score: 443
Period size: 89 Copynumber: 3.5 Consensus size: 89
41131994 TCGGAAAATT
* * * *
41132004 AATAATACGCAAC-AAATTAAATTTACAGATACAAGAAAATACAAACATTCTAGAATATTAATAC
1 AATAATACG-GACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATAC
41132068 A-TGAAAATATAAAATTCAAACAACA
65 ACT-AAAATATAAAATTCAAACAACA
** * *
41132093 AATAATAC-GAGCTAAATTAAATTTACAGACCCAAAAAAATACAACCATTTTAAAAAATTAATAC
1 AATAATACGGA-CTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATAC
*
41132157 ACGAAAATATAAAATTCAAACAACA
65 ACTAAAATATAAAATTCAAACAACA
41132182 AATAATACGGACTAAATTAAATTTACAGATA-AAAAAAATACAAACATTCTAAAAAATTAATACA
1 AATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATACA
*
41132246 CTAAAATATAAAATTCGAACAACA
66 CTAAAATATAAAATTCAAACAACA
* **
41132270 AATAATACAGACTAAATTTGATTTACAGATACAAAAATAATACAAA
1 AATAATACGGACTAAATTAAATTTACAGATACAAAAA-AATACAAA
41132316 AATTTTGAAT
Statistics
Matches: 199, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
87 1 0.01
88 82 0.41
89 106 0.53
90 10 0.05
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (89 bp):
AATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATACA
CTAAAATATAAAATTCAAACAACA
Found at i:41132944 original size:54 final size:54
Alignment explanation
Indices: 41132811--41132944 Score: 137
Period size: 54 Copynumber: 2.5 Consensus size: 54
41132801 TCAGTTGCCC
* * * **
41132811 AAAAAAGAATTCGAAACCCGAAAAAGGTGGTGCCGGCCATCAGTGTCTTAAAACA
1 AAAAAAAAATTCGAAACCCG-AAAAGATGGTGCCGGCCATCAATGTCCCAAAACA
** * *
41132866 AAAAAAAAATT-GGGACCCAAAAAAGATGGTGTCGGCCATCAATGTCCCAAAAC-
1 AAAAAAAAATTCGAAACCC-GAAAAGATGGTGCCGGCCATCAATGTCCCAAAACA
*
41132919 AAAAAAAATTCTCGAAACCCGAAAAG
1 AAAAAAAAAT-TCGAAACCCGAAAAG
41132945 TGTGTTGCTG
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
53 9 0.14
54 39 0.62
55 15 0.24
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.15
Consensus pattern (54 bp):
AAAAAAAAATTCGAAACCCGAAAAGATGGTGCCGGCCATCAATGTCCCAAAACA
Found at i:41133555 original size:4 final size:4
Alignment explanation
Indices: 41133546--41133717 Score: 76
Period size: 4 Copynumber: 41.8 Consensus size: 4
41133536 GGGAAAGGAG
* *
41133546 AAGA AAGA AAG- AA-A AAGA AAGAA AAGGA AAGGA GAGGA GAGGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA -AAGA AAGA
*
41133593 AAG- AA-A AAGA AGGA AAGAA AAGGA AAGGA GAAGA AA-A AAGA AAG-
1 AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA AAGA AAGA
*
41133637 AA-A AAGA AGGA AAGAA AAGGA AATGA GAAGA AA-A AAGA AAGA AAG-
1 AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA AAGA AAGA AAGA
* * *
41133682 AAGA AGAGGA AAGG AAGG AA-A AAGA AAGA AAAA AAG
1 AAGA A-A-GA AAGA AAGA AAGA AAGA AAGA AAGA AAG
41133718 GTGATTTCTT
Statistics
Matches: 136, Mismatches: 11, Indels: 42
0.72 0.06 0.22
Matches are distributed among these distances:
3 23 0.17
4 63 0.46
5 39 0.29
6 11 0.08
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:41133562 original size:10 final size:10
Alignment explanation
Indices: 41133544--41133714 Score: 105
Period size: 10 Copynumber: 16.7 Consensus size: 10
41133534 GAGGGAAAGG
41133544 AGAAGAAAGAA
1 AGAA-AAAGAA
41133555 AGAAAAAGAA
1 AGAAAAAGAA
*
41133565 AGAAAAGGAA
1 AGAAAAAGAA
* * * *
41133575 AGGAGAGGAG
1 AGAAAAAGAA
*
41133585 AG-GAAAGAA
1 AGAAAAAGAA
41133594 AGAAAAAGAA
1 AGAAAAAGAA
* *
41133604 GGAAAGA-AA
1 AGAAAAAGAA
* *
41133613 AGGAAAGGAGA
1 AGAAAAAGA-A
41133624 AGAAAAAAGAA
1 AG-AAAAAGAA
41133635 AGAAAAAGAA
1 AGAAAAAGAA
* *
41133645 GGAAAGA-AA
1 AGAAAAAGAA
* *
41133654 AGGAAATGAGA
1 AGAAAAAGA-A
41133665 AGAAAAAAGAA
1 AG-AAAAAGAA
41133676 AGAAAGAAGAA
1 AGAAA-AAGAA
* *
41133687 GAGGAAAGGAA
1 -AGAAAAAGAA
*
41133698 GGAAAAAGAA
1 AGAAAAAGAA
41133708 AGAAAAA
1 AGAAAAA
41133715 AAGGTGATTT
Statistics
Matches: 120, Mismatches: 31, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
9 15 0.12
10 66 0.55
11 25 0.21
12 14 0.12
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:41133576 original size:5 final size:5
Alignment explanation
Indices: 41133537--41133659 Score: 67
Period size: 5 Copynumber: 25.0 Consensus size: 5
41133527 AGAAGGAGAG
* * * * *
41133537 GGAAA GGAGAA -GAAA -GAAA GAAAA AGAAA GAAAA GGAAA GGAGA GGAGA
1 GGAAA GGA-AA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
* * * * *
41133586 GGAAA -GAAA GAAAA AG-AA GGAAA GAAAA GGAAA GGAGAA GAAAAA AGAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGA-AA G-GAAA GGAAA
* * *
41133636 GAAAA AG-AA GGAAA GAAAA GGAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA
41133660 TGAGAAGAAA
Statistics
Matches: 87, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
4 16 0.18
5 63 0.72
6 7 0.08
7 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:41133634 original size:31 final size:29
Alignment explanation
Indices: 41133585--41133681 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 29
41133575 AGGAGAGGAG
*
41133585 AGGAAAG-AAAGAAAAAGAAGGAAAGAA-A
1 AGGAAAGGAAAGAAAAAGAAAGAAA-AAGA
41133613 AGGAAAGGAGAAGAAAAAAGAAAGAAAAAGA
1 AGGAAAGGA-AAG-AAAAAGAAAGAAAAAGA
* * *
41133644 AGGAAAGAAAAGGAAATGAGAAGAAAAAAGA
1 AGGAAAGGAAAGAAAAAGA-AAG-AAAAAGA
*
41133675 AAGAAAG
1 AGGAAAG
41133682 AAGAAGAGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
28 7 0.12
29 6 0.10
30 11 0.19
31 34 0.59
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (29 bp):
AGGAAAGGAAAGAAAAAGAAAGAAAAAGA
Found at i:41133645 original size:41 final size:42
Alignment explanation
Indices: 41133546--41133687 Score: 209
Period size: 41 Copynumber: 3.4 Consensus size: 42
41133536 GGGAAAGGAG
* **
41133546 AAGAAAGAAAGAA-AAAGAAAGAAAAGGAAAGGAGAGGAGAGGA
1 AAGAAAGAAAGAAGAAGGAAAGAAAAGGAAAGGAGA--AGAAAA
41133589 AAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAAAA
1 AAGAAAGAAAGAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAA
*
41133630 AAGAAAGAAA-AAGAAGGAAAGAAAAGGAAATGAGAAGAAAA
1 AAGAAAGAAAGAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAA
41133671 AAGAAAGAAAGAAGAAG
1 AAGAAAGAAAGAAGAAG
41133688 AGGAAAGGAA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
41 54 0.58
42 8 0.09
43 31 0.33
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (42 bp):
AAGAAAGAAAGAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAA
Found at i:41133676 original size:7 final size:8
Alignment explanation
Indices: 41133546--41133717 Score: 76
Period size: 7 Copynumber: 20.9 Consensus size: 8
41133536 GGGAAAGGAG
41133546 AAGAAAGA
1 AAGAAAGA
41133554 AAG-AA-A
1 AAGAAAGA
41133560 AAGAAAGAA
1 AAGAAAG-A
41133569 AAGGAAAGGA
1 AA-GAAA-GA
* *
41133579 GAGGAGAGGA
1 -AAGA-AAGA
41133589 AAGAAAG-
1 AAGAAAGA
41133596 AA-AAAGA
1 AAGAAAGA
*
41133603 AGGAAAGAA
1 AAGAAAG-A
41133612 AAGGAAAGGA
1 AA-GAAA-GA
41133622 GAAGAAA-A
1 -AAGAAAGA
41133630 AAGAAAG-
1 AAGAAAGA
41133637 AA-AAAGA
1 AAGAAAGA
*
41133644 AGGAAAGAA
1 AAGAAAG-A
41133653 AAGGAAATGA
1 AA-GAAA-GA
41133663 GAAGAAA-A
1 -AAGAAAGA
41133671 AAGAAAGA
1 AAGAAAGA
41133679 AAG-AAGA
1 AAGAAAGA
*
41133686 AGAGGAAAGG
1 A-A-GAAAGA
*
41133696 AAGGAA-A
1 AAGAAAGA
41133703 AAGAAAGA
1 AAGAAAGA
*
41133711 AAAAAAG
1 AAGAAAG
41133718 GTGATTTCTT
Statistics
Matches: 126, Mismatches: 13, Indels: 50
0.67 0.07 0.26
Matches are distributed among these distances:
6 12 0.10
7 32 0.25
8 30 0.24
9 12 0.10
10 31 0.25
11 9 0.07
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (8 bp):
AAGAAAGA
Found at i:41134285 original size:13 final size:13
Alignment explanation
Indices: 41134248--41134285 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
41134238 AAATGTACTG
*
41134248 AAATAATATA-AA
1 AAATAATATATTA
41134260 ATAATAATATATTA
1 A-AATAATATATTA
41134274 AAATAATATATT
1 AAATAATATATT
41134286 TTTATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 1 0.04
13 20 0.87
14 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATAATATATTA
Found at i:41134417 original size:157 final size:153
Alignment explanation
Indices: 41134043--41134514 Score: 515
Period size: 157 Copynumber: 3.0 Consensus size: 153
41134033 AAAAATGGTA
*
41134043 TATTTAAAAAACACACTAAATTAATAAATTTCAAATATAATGTACTGAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
* * *
41134108 AAATTAGAAAATATGATATTTT-TT-AAAGTAATAAAATGCAAAGAAAAAAATACGAACAAAGGG
66 AAATTAAAAAATAT-AT-TTTTATTGAAAGTAATAAAATTC-AAGAAAATAATACGAACAAAGGG
* *
41134171 CCGAAGTAAGAGTTTTTTACTAAATT
128 ACGAAGTAAGAGTTTTTTACAAAATT
* * * * *
41134197 T-TTTAAAAATTCAGA-AATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
1 TATTTAAAAA-ACACACTA-AATTAAT---AA-ATTTCAAACATAATGTACTGAAATAATGTAAA
* *
41134260 ATAATAATATATTAAAATAATATATTTTTATTGAAAGTAATAAAATTCATGAAAATAATACGAGC
60 ATAATAA-A-ATTAAAA-AATATATTTTTATTGAAAGTAATAAAATTCAAGAAAATAATACGAAC
* *
41134325 AAAGGGTAGGAA-TAAGGGGTTTTTTTA-AAAATT
122 AAAGGG-ACGAAGTAA-GAG-TTTTTTACAAAATT
41134358 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
* * * * *
41134423 AAATTAGAAAATATGATATTTTTATTGAAAGTAATAAAATTCGAGAAAATAGTAGGAATAAATGG
66 AAATTA-AAAA-AT-ATATTTTTATTGAAAGTAATAAAATTCAAGAAAATAATACGAACAAAGGG
* * * * *
41134488 CCAAAATAAGGGTTTTTTACTAAATT
128 ACGAAGTAAGAGTTTTTTACAAAATT
41134514 T
1 T
41134515 TTTTTGAACT
Statistics
Matches: 266, Mismatches: 31, Indels: 40
0.79 0.09 0.12
Matches are distributed among these distances:
153 9 0.03
154 11 0.04
155 12 0.05
156 17 0.06
157 85 0.32
158 38 0.14
159 5 0.02
160 33 0.12
161 40 0.15
162 16 0.06
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (153 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
AAATTAAAAAATATATTTTTATTGAAAGTAATAAAATTCAAGAAAATAATACGAACAAAGGGACG
AAGTAAGAGTTTTTTACAAAATT
Found at i:41136180 original size:12 final size:12
Alignment explanation
Indices: 41136163--41136188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41136153 TCCCGAGCTG
41136163 GAGCCCCAGCCA
1 GAGCCCCAGCCA
41136175 GAGCCCCAGCCA
1 GAGCCCCAGCCA
41136187 GA
1 GA
41136189 TCCCGAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.46, G:0.27, T:0.00
Consensus pattern (12 bp):
GAGCCCCAGCCA
Found at i:41138355 original size:10 final size:10
Alignment explanation
Indices: 41138327--41138363 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
41138317 AAATATCTTT
41138327 TTTTTCTCTTC
1 TTTTTCTC-TC
*
41138338 TCTTTCTCTC
1 TTTTTCTCTC
41138348 TTTTTCTCTC
1 TTTTTCTCTC
41138358 TTTTTC
1 TTTTTC
41138364 CGGTAGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:41138683 original size:14 final size:14
Alignment explanation
Indices: 41138647--41138684 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
41138637 TAATTTTTTA
41138647 TTTTGGGATTAATT
1 TTTTGGGATTAATT
*
41138661 TTTT--TATTAATT
1 TTTTGGGATTAATT
41138673 TTTTGGGATTAA
1 TTTTGGGATTAA
41138685 ATGAGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.61
Consensus pattern (14 bp):
TTTTGGGATTAATT
Found at i:41138908 original size:20 final size:18
Alignment explanation
Indices: 41138875--41138913 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
41138865 ATTTAATCCA
*
41138875 TTGAATCTAGATAAGGTT
1 TTGAATCTAGATAAAGTT
41138893 TTGACATCTCAGATAAAGTT
1 TTGA-ATCT-AGATAAAGTT
41138913 T
1 T
41138914 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (18 bp):
TTGAATCTAGATAAAGTT
Found at i:41138943 original size:6 final size:6
Alignment explanation
Indices: 41138932--41138988 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
41138922 ATAAATAATT
* *
41138932 ATTTTA ATTTTA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
41138980 ATTTCA ATT
1 ATTTCA ATT
41138989 GTTTAAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCA
Found at i:41140379 original size:18 final size:19
Alignment explanation
Indices: 41140358--41140401 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
41140348 TTAAAATATT
41140358 AAAATATTAAATTTT-AGA
1 AAAATATTAAATTTTAAGA
*
41140376 AAAATATTAAATTTTAATA
1 AAAATATTAAATTTTAAGA
41140395 AAAATAT
1 AAAATAT
41140402 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATATTAAATTTTAAGA
Found at i:41140387 original size:7 final size:8
Alignment explanation
Indices: 41140342--41140368 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
41140332 AAATTAGAAA
41140342 AAAATATT
1 AAAATATT
41140350 AAAATATT
1 AAAATATT
41140358 AAAATATT
1 AAAATATT
41140366 AAA
1 AAA
41140369 TTTTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:41140410 original size:18 final size:18
Alignment explanation
Indices: 41140329--41140410 Score: 51
Period size: 19 Copynumber: 4.6 Consensus size: 18
41140319 CTTATTTTAT
*
41140329 TAAAAATTAGAAAAAAATA
1 TAAAAATTA-ATAAAAATA
* *
41140348 TTAAAA-T-ATTAAAATA
1 TAAAAATTAATAAAAATA
* * * *
41140364 TTAAATTTTAGAAAAATA
1 TAAAAATTAATAAAAATA
**
41140382 TTAAATTTTAATAAAAATA
1 -TAAAAATTAATAAAAATA
41140401 TAAAAATTAA
1 TAAAAATTAA
41140411 AATTTATTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
16 12 0.25
17 1 0.02
18 16 0.33
19 19 0.40
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATTAATAAAAATA
Found at i:41140708 original size:5 final size:5
Alignment explanation
Indices: 41140692--41140728 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
41140682 CAACTTTTTT
41140692 GGCCC GGGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
41140729 ATATAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.57, G:0.43, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:41140772 original size:11 final size:11
Alignment explanation
Indices: 41140756--41140824 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
41140746 ATTTTTTTAA
41140756 TTTTAAAATAT
1 TTTTAAAATAT
41140767 TTTTAAAATACTT
1 TTTTAAAATA--T
41140780 TTTTAAAA-AT
1 TTTTAAAATAT
* *
41140790 TTTT---TTAA
1 TTTTAAAATAT
41140798 TTTTAAAATAT
1 TTTTAAAATAT
41140809 TTTTAAAATACT
1 TTTTAAAATA-T
41140821 TTTT
1 TTTT
41140825 TTAATTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
8 5 0.11
10 5 0.11
11 22 0.47
12 6 0.13
13 9 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:41140793 original size:12 final size:12
Alignment explanation
Indices: 41140756--41140797 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
41140746 ATTTTTTTAA
*
41140756 TTTT-AAAATAT
1 TTTTAAAAATTT
*
41140767 TTTTAAAATACTT
1 TTTTAAAA-ATTT
41140780 TTTTAAAAATTT
1 TTTTAAAAATTT
41140792 TTTTAA
1 TTTTAA
41140798 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.15
12 12 0.46
13 10 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAAAATTT
Found at i:41140802 original size:31 final size:32
Alignment explanation
Indices: 41140765--41140839 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
41140755 ATTTTAAAAT
41140765 ATTTTTAAAATACTTTTTTAAAA-A-TTTTTTTA
1 ATTTTTAAAATA--TTTTTAAAATACTTTTTTTA
41140797 A-TTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATATTTTTAAAATACTTTTTTTA
41140828 ATTTTTAAAATA
1 ATTTTTAAAATA
41140840 AATTTTTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
29 9 0.22
30 1 0.03
31 19 0.47
32 11 0.28
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (32 bp):
ATTTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:41140805 original size:42 final size:42
Alignment explanation
Indices: 41140746--41140825 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
41140736 AAATATATTT
41140746 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAA
41140788 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
41140826 TAATTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (42 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAA
Found at i:41140845 original size:21 final size:21
Alignment explanation
Indices: 41140807--41140846 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41140797 ATTTTAAAAT
**
41140807 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
41140828 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
41140847 AGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:41140853 original size:22 final size:21
Alignment explanation
Indices: 41140806--41140864 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
41140796 AATTTTAAAA
* *
41140806 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
41140826 TAATTTTTAAAATAAATTTTTAG
1 T-ATTTTTAAAATAAATTTTT-G
41140849 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
41140865 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:41142847 original size:34 final size:34
Alignment explanation
Indices: 41142809--41142877 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
41142799 AATTATAAAG
41142809 ATATATTTGATCATGGTATTTAAATTACTGTCTA
1 ATATATTTGATCATGGTATTTAAATTACTGTCTA
**
41142843 ATATATTTGATCATGGTATTTTGATTACTGTCTA
1 ATATATTTGATCATGGTATTTAAATTACTGTCTA
41142877 A
1 A
41142878 AGTTTGTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (34 bp):
ATATATTTGATCATGGTATTTAAATTACTGTCTA
Found at i:41143594 original size:20 final size:20
Alignment explanation
Indices: 41143569--41143615 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
41143559 TTTGTGCATG
41143569 TATGTGTGCGTTCCTGTTCA
1 TATGTGTGCGTTCCTGTTCA
41143589 TATGTGTGCGTTCCTGTTCA
1 TATGTGTGCGTTCCTGTTCA
41143609 TATGTGT
1 TATGTGT
41143616 AATGTTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.47
Consensus pattern (20 bp):
TATGTGTGCGTTCCTGTTCA
Found at i:41144910 original size:23 final size:21
Alignment explanation
Indices: 41144884--41144924 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
41144874 AATTAAATTA
41144884 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
41144905 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
41144925 AATTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:41145070 original size:61 final size:61
Alignment explanation
Indices: 41145005--41145195 Score: 230
Period size: 61 Copynumber: 3.2 Consensus size: 61
41144995 ATTTTATATT
41145005 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * ** * * * * * *
41145066 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
41145125 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
41145186 ATTATATATT
1 ATTATATATT
41145196 TTTATTAAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 7 0.07
59 32 0.31
60 14 0.14
61 42 0.41
62 7 0.07
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:41145094 original size:120 final size:120
Alignment explanation
Indices: 41144955--41145230 Score: 534
Period size: 120 Copynumber: 2.3 Consensus size: 120
41144945 ATATTAAGAA
*
41144955 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
41145020 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
41145075 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
41145140 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
41145195 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAA
41145231 ATATGATTAA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 154 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:41145458 original size:45 final size:44
Alignment explanation
Indices: 41145369--41145466 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 44
41145359 ATTACAACAT
* *
41145369 CATTCCATTCAACCAAACACAAGAATACTATTACATTTCTATTC
1 CATTCCAGTCAACCAAACACAAGAATACTATTACACTTCTATTC
* *
41145413 CATTCCAGTCAACCAAACA-ATTGAATTACTATTACGCTTCTATTC
1 CATTCCAGTCAACCAAACACA-AGAA-TACTATTACACTTCTATTC
*
41145458 CATTACAGT
1 CATTCCAGT
41145467 TTTATTCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCCAGTCAACCAAACACAAGAATACTATTACACTTCTATTC
Found at i:41156637 original size:16 final size:16
Alignment explanation
Indices: 41156616--41156647 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
41156606 TTTTTTAGGG
41156616 TTTTTCAAATTTTTAT
1 TTTTTCAAATTTTTAT
41156632 TTTTTCAAATTTTTAT
1 TTTTTCAAATTTTTAT
41156648 GATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCAAATTTTTAT
Found at i:41157812 original size:56 final size:55
Alignment explanation
Indices: 41157726--41157833 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 55
41157716 GTATCCATTG
41157726 GATGATAAATCATCACTTTTAATTTGAATAGTGC-CTATGAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTC-ATGAATAATT-AATTTGTAA
41157782 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
41157834 CAATCTATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
55 6 0.12
56 44 0.86
57 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:41159505 original size:477 final size:477
Alignment explanation
Indices: 41158611--41159567 Score: 1788
Period size: 477 Copynumber: 2.0 Consensus size: 477
41158601 CACAACTTTT
41158611 TATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTCA
1 TATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTCA
41158676 GCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTCC
66 GCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTCC
*
41158741 AATTGTAAAAATTCATCCTGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCCG
131 AATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCCG
*
41158806 AGTAACCTTCTAGTACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAGA
196 AGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAGA
*
41158871 TAGCCAAAAATTCTACAAATGCCTTTCCAATGATCGGTACAAGGACAATTTGTAAATCTCGCTAA
261 TAGCCAAAAATTCTACAAATGCCTTTCCAATGATCGGTACAAGGACAATTTGTAAATCTCGCCAA
* *
41158936 TTTGCACACAGCAAATGAGATATTAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATTA
326 TTTGCACACAACAAATGAGATATCAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATTA
*
41159001 CGCTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATCG
391 CACTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATCG
*
41159066 TATGGAGTGTTCGAATCCTTGA
456 TATGGAGTGTTCAAATCCTTGA
41159088 TATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTCA
1 TATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTCA
41159153 GCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTCC
66 GCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTCC
41159218 AATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCCG
131 AATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCCG
*
41159283 AGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAATTTATTTATTTTCTTAAGA
196 AGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAGA
41159348 TAGCCAAAAATTCTACAAATGCCTTTCCAATGATCGGTACAAGGACAATTTGTAAATCTCGCCAA
261 TAGCCAAAAATTCTACAAATGCCTTTCCAATGATCGGTACAAGGACAATTTGTAAATCTCGCCAA
* * * * *
41159413 TTTGCACACAACAAATGCGATATCAGGTTTAGTATAATGCATTGCATACATTAGACTTCCGATTG
326 TTTGCACACAACAAATGAGATATCAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATTA
*
41159478 CACTGGCGTACTCAAGTTGCGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATCG
391 CACTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATCG
41159543 TATGGAGTGTTCAAATCCTTGA
456 TATGGAGTGTTCAAATCCTTGA
41159565 TAT
1 TAT
41159568 TCAAGTGTTT
Statistics
Matches: 466, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
477 466 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (477 bp):
TATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTCA
GCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTCC
AATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCCG
AGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAGA
TAGCCAAAAATTCTACAAATGCCTTTCCAATGATCGGTACAAGGACAATTTGTAAATCTCGCCAA
TTTGCACACAACAAATGAGATATCAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATTA
CACTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATCG
TATGGAGTGTTCAAATCCTTGA
Found at i:41164522 original size:121 final size:121
Alignment explanation
Indices: 41164304--41164544 Score: 464
Period size: 121 Copynumber: 2.0 Consensus size: 121
41164294 TATGATATCC
41164304 TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
1 TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
41164369 GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTCG
66 GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTCG
*
41164425 TTGATTCCTTTGAGTTAAATTTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
1 TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
*
41164490 GTCTTCTTAATGATTAATATAATCACTGTCAACAAATGATTGTGATAAATTACTC
66 GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTC
41164545 TGTTCAAGAA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (121 bp):
TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTCG
Found at i:41171294 original size:26 final size:26
Alignment explanation
Indices: 41171258--41171309 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
41171248 CACCACTGAA
* *
41171258 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41171284 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41171310 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:41171386 original size:70 final size:71
Alignment explanation
Indices: 41171270--41171420 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
41171260 GGGGAATCAT
*
41171270 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
41171334 ATATCG
66 ATATCG
* ***
41171340 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
41171405 GATATCG
65 GATATCG
41171412 CACTTAGCA
1 CACTTAGCA
41171421 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:41171463 original size:26 final size:26
Alignment explanation
Indices: 41171433--41171483 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
41171423 ACCAATGAAC
*
41171433 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
41171459 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
41171484 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:41171523 original size:103 final size:104
Alignment explanation
Indices: 41171339--41171561 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
41171329 AATGGATATC
41171339 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
41171404 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
41171443 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
41171507 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
41171546 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
41171562 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:41171921 original size:29 final size:29
Alignment explanation
Indices: 41171888--41171951 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
41171878 TAATCCACCA
41171888 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
41171917 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
41171947 CCCAA
1 CCCAA
41171952 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:41171925 original size:30 final size:30
Alignment explanation
Indices: 41171895--41171951 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41171885 CCACCCAACT
41171895 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
41171924 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
41171952 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:41178636 original size:26 final size:26
Alignment explanation
Indices: 41178600--41178651 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
41178590 CACCACTGAA
* *
41178600 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41178626 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41178652 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:41178774 original size:71 final size:68
Alignment explanation
Indices: 41178612--41178794 Score: 205
Period size: 71 Copynumber: 2.6 Consensus size: 68
41178602 GGGGAATCAT
* *
41178612 CACTTAGCAACCCCT-CGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAA-CCCCTTTACATTTCAAAGAT--AATGG
41178676 ATATCG
63 ATATCG
*
41178682 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGC-ACCCCTTTCACATTTCAAAGAT-ATGGGA
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCTTT-ACATTTCAAAGATAAT-GGA
41178745 TAT-G
64 TATCG
*
41178749 CACTTAGC-ACCCCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
1 CACTTAGCAACCCC--T---CCGGGGAATCAGCACATAGCAACCCCT
41178795 CGGGGAATCA
Statistics
Matches: 99, Mismatches: 5, Indels: 16
0.82 0.04 0.13
Matches are distributed among these distances:
66 5 0.05
67 11 0.11
68 7 0.07
69 7 0.07
70 27 0.27
71 36 0.36
72 6 0.06
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (68 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCTTTACATTTCAAAGATAATGGATA
TCG
Found at i:41178799 original size:26 final size:26
Alignment explanation
Indices: 41178769--41178819 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
41178759 CCCAATGAAC
*
41178769 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
41178795 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
41178820 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:41178893 original size:102 final size:98
Alignment explanation
Indices: 41178687--41178896 Score: 289
Period size: 102 Copynumber: 2.1 Consensus size: 98
41178677 TATCGCACTT
*
41178687 AGCAACCCCTCGGGGGAATCAGCACATAGCACCCCTTTCACATTTCAAAGATATGGGATATGCAC
1 AGCAACCCCTCGGGGGAATCAGCACATAGCACCCCTTTCACATTTCAAAGATATGGGATACGCAC
* * **
41178752 TTAGCACCCCAATGAACCGGGGAATCAGCACTT
66 ATAGCACCCCAATAAACCGGGGAATCAGCACAC
41178785 AGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCA
1 AGCAACCCCTCGGGGGAATCAGCACATAGC-A-CCCCTTTCACATTTCAAAGATAT-G-GGAT-A
* *
41178849 CGCACATAGCACCACCCATAAATC-GGGAATCAGCACAC
61 CGCACATAGCACC-CCAATAAACCGGGGAATCAGCACAC
41178887 AGCAACCCCT
1 AGCAACCCCT
41178897 TTATATACAA
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
97 18 0.18
98 12 0.12
99 23 0.23
100 1 0.01
101 4 0.04
102 34 0.34
103 7 0.07
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (98 bp):
AGCAACCCCTCGGGGGAATCAGCACATAGCACCCCTTTCACATTTCAAAGATATGGGATACGCAC
ATAGCACCCCAATAAACCGGGGAATCAGCACAC
Found at i:41199353 original size:39 final size:40
Alignment explanation
Indices: 41199310--41199567 Score: 271
Period size: 40 Copynumber: 6.6 Consensus size: 40
41199300 TCCTCGTTCA
* * * * *
41199310 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
41199349 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
41199388 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41199428 AATGCCTTCGGGACTTAACCCGGA-TT--TAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
41199465 AATGCCTTC-GGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
41199504 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41199544 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41199568 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
36 14 0.07
37 21 0.11
38 19 0.10
39 50 0.26
40 81 0.42
41 8 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41199527 original size:116 final size:116
Alignment explanation
Indices: 41199310--41199567 Score: 283
Period size: 116 Copynumber: 2.2 Consensus size: 116
41199300 TCCTCGTTCA
* *
41199310 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTAACCCGGATTT
1 AATGCCTTCGGGACTTAGCCCGG-ATTA-TAACTCACACAATGCCTTCGGGACTAACCCGGATTT
* * * *
41199375 AACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
64 AACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* *
41199427 GAATGCCTTCGGGACTTAACCCGGATT-TAACTCGCACGAATGCCTTC-GGACTTAACCCGGATT
1 -AATGCCTTCGGGACTTAGCCCGGATTATAACTCACAC-AATGCCTTCGGGAC-TAACCCGGATT
** * ** *
41199490 TAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 TAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
41199544 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41199568 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
115 16 0.13
116 74 0.62
117 8 0.07
118 21 0.18
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (116 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAACTCACACAATGCCTTCGGGACTAACCCGGATTTAA
CAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:41199528 original size:76 final size:77
Alignment explanation
Indices: 41199310--41199514 Score: 254
Period size: 76 Copynumber: 2.7 Consensus size: 77
41199300 TCCTCGTTCA
* * * ** * *
41199310 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGAC-TAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
41199373 TTAACAACTCGCACG
66 TT---AACTCGCACG
* *
41199388 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
41199453 TTAACTCGCACG
66 TTAACTCGCACG
** *
41199465 AATGCCTTC-GGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGG
41199515 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
76 36 0.32
77 19 0.17
78 33 0.29
79 14 0.12
80 12 0.11
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (77 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
TTAACTCGCACG
Found at i:41199576 original size:41 final size:41
Alignment explanation
Indices: 41199499--41199576 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
41199489 TTAGTATCTC
* * *
41199499 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
41199540 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
41199577 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:41207440 original size:120 final size:119
Alignment explanation
Indices: 41207218--41207480 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
41207208 TCCTCGTTCA
* * **
41207218 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
* * * *
41207283 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* *
41207336 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
** * ** *
41207401 TTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
41207457 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41207481 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 36 0.30
120 80 0.66
121 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:41207441 original size:40 final size:40
Alignment explanation
Indices: 41207218--41207427 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
41207208 TCCTCGTTCA
* * * ** *
41207218 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
41207257 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
41207297 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
41207337 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
41207377 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
41207417 AAGGCCTTCGG
1 AATGCCTTCGG
41207428 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:41207464 original size:80 final size:80
Alignment explanation
Indices: 41207221--41207480 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 80
41207211 TCGTTCAAAT
* * * ** * * *
41207221 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
41207285 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * *
41207300 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
41207365 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
** * **
41207380 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
41207444 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
41207460 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
41207481 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 33 0.21
80 120 0.75
81 6 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:41207489 original size:41 final size:41
Alignment explanation
Indices: 41207412--41207489 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
41207402 TTAGTATCTC
* * *
41207412 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
41207453 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
41207490 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:41211604 original size:51 final size:51
Alignment explanation
Indices: 41211518--41211627 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 51
41211508 TAGACTCCTT
41211518 CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
1 CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
* * * ** * *
41211569 CAACTTTATGGTGATTTTCCTTGATGTTATGACTTTTGTAGCATATTTTTG
1 CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
41211620 CAACCTTA
1 CAACCTTA
41211628 ACACTTGATG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (51 bp):
CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
Found at i:41217042 original size:20 final size:20
Alignment explanation
Indices: 41217017--41217058 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
41217007 TAAAGACAGT
* * *
41217017 TGTCTTTATTTAGTGTATCC
1 TGTCTTAATCTAGTATATCC
41217037 TGTCTTAATCTAGTATATCC
1 TGTCTTAATCTAGTATATCC
41217057 TG
1 TG
41217059 CCAATTGCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (20 bp):
TGTCTTAATCTAGTATATCC
Found at i:41222199 original size:49 final size:48
Alignment explanation
Indices: 41222039--41222238 Score: 181
Period size: 49 Copynumber: 4.2 Consensus size: 48
41222029 GCGTATCAAT
* * *
41222039 AATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCCACCGAT
1 AATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCCACCGAG
* * * * * *
41222087 ATTCTGTTGTG--ACAAGGGTGGCACGGACTACGTACAGGCCACCAAT
1 AATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCCACCGAG
* * * *
41222133 AA-CTTTTTAAGATACAAAGGGTGGCACGGACTATGTGCAGGCCATCGAG
1 AATC-TGTTATGACAC-AAGGGTGGCACGGACTATGTGCAGGCCACCGAG
* * * * * *
41222182 AATCTGTTATTACACAAAGGTGGTACGAACTGTGTGCAGGCCACTGAG
1 AATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCCACCGAG
41222230 AAATCTGTT
1 -AATCTGTT
41222239 TTTATTCCGA
Statistics
Matches: 120, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 35 0.29
48 38 0.32
49 45 0.38
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
AATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCCACCGAG
Found at i:41235812 original size:22 final size:21
Alignment explanation
Indices: 41235785--41236116 Score: 232
Period size: 22 Copynumber: 15.1 Consensus size: 21
41235775 TAGATTAGAA
*
41235785 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGT-AATT
*
41235807 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
41235828 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
* *
41235846 TGTTGTATGAATATTGTATTT
1 TTTTGTATGAATATTGTAATT
* *
41235867 ATTTTATAGTTAA-ATTTGT-ATT
1 -TTTTGTA-TGAATA-TTGTAATT
* * * * *
41235889 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
41235910 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
41235929 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGT-AATT
41235951 TTTTGTATGAATATTGTAATATT
1 TTTTGTATGAATATTGT-A-ATT
*
41235974 ATAGTTTGTATGAATATTG-CATT
1 -T--TTTGTATGAATATTGTAATT
41235997 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTGTAA---T-T
* * *
41236022 AATTTTATATGAATATTATATTT
1 --TTTTGTATGAATATTGTAATT
41236045 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
41236070 AATTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
41236094 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
41236115 TT
1 TT
41236117 GTAATTTTGT
Statistics
Matches: 248, Mismatches: 32, Indels: 61
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.01
19 29 0.12
20 38 0.15
21 43 0.17
22 63 0.25
23 14 0.06
24 5 0.02
25 5 0.02
26 16 0.06
27 32 0.13
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:41235856 original size:19 final size:20
Alignment explanation
Indices: 41235783--41236022 Score: 114
Period size: 20 Copynumber: 11.5 Consensus size: 20
41235773 TTTAGATTAG
*
41235783 AATT-TTGTATGAATATTTT
1 AATTGTTGTATGAATATTGT
* *
41235802 AAATTTTTTGTATGAATATTAT
1 -AA-TTGTTGTATGAATATTGT
* *
41235824 AATTTTTTTATGAATATTGT
1 AATTGTTGTATGAATATTGT
41235844 AA-TGTTGTATGAATATTGT
1 AATTGTTGTATGAATATTGT
* * *
41235863 ATTTATTTTATAGTTAA-ATTTGT
1 AATTGTTGTAT-G--AATA-TTGT
* * * * * *
41235886 ATTTATAGTTTTGGAT-TAGT
1 AATTGTTG-TATGAATATTGT
*
41235906 AATTTTTTGTATGAATATTGT
1 AA-TTGTTGTATGAATATTGT
*
41235927 AATT-TTGTATGAATATTAT
1 AATTGTTGTATGAATATTGT
*
41235946 AAATTTTTTGTATGAATATTGT
1 -AA-TTGTTGTATGAATATTGT
*
41235968 AATATTATAGTTTGTATGAATATTGC
1 -A-A-T-T-G-TTGTATGAATATTGT
* *
41235994 ATTTTTTGTATGAATATTGT
1 AATTGTTGTATGAATATTGT
41236014 AATT-TTGTA
1 AATTGTTGTA
41236023 ATTTTATATG
Statistics
Matches: 175, Mismatches: 27, Indels: 37
0.73 0.11 0.15
Matches are distributed among these distances:
19 35 0.20
20 56 0.32
21 17 0.10
22 32 0.18
23 17 0.10
24 3 0.02
25 1 0.01
26 14 0.08
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
AATTGTTGTATGAATATTGT
Found at i:41235927 original size:41 final size:42
Alignment explanation
Indices: 41235882--41236115 Score: 127
Period size: 41 Copynumber: 5.2 Consensus size: 42
41235872 ATAGTTAAAT
41235882 TTGT-ATTTATAGTTTTGGATTAGT-AATTTTTTGTATGAATA
1 TTGTAATTTATAGTTTTGGATTA-TAAATTTTTTGTATGAATA
* *
41235923 TTGTAATTT-T-G-TATGAATATTATAAATTTTTTGTATGAATA
1 TTGTAATTTATAGTTTTG--GATTATAAATTTTTTGTATGAATA
* * **
41235964 TTGTAATATTATAGTTTGTATGAATATTGCATTTTTTGTATGAATA
1 TTGTAAT-TTATAGTTT-T-GGATTA-TAAATTTTTTGTATGAATA
* * * * *
41236010 TTGTAATTTTGTAATTTTATATGAATATTATATTTTTTTGTATGAATA
1 TTGTAA-TTTAT-AGTTT-T-GGATTA-TA-AATTTTTTGTATGAATA
* * *
41236058 TTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATA
1 TTGTAAT-TTATAGTTTTG---GATTA-T--AAATTTTTTGTATGAATA
41236107 TTGTAATTT
1 TTGTAATTT
41236116 TGTAATTTTG
Statistics
Matches: 156, Mismatches: 17, Indels: 33
0.76 0.08 0.16
Matches are distributed among these distances:
39 3 0.02
40 2 0.01
41 33 0.21
42 6 0.04
43 1 0.01
44 1 0.01
45 4 0.03
46 28 0.18
47 20 0.13
48 33 0.21
49 24 0.15
50 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (42 bp):
TTGTAATTTATAGTTTTGGATTATAAATTTTTTGTATGAATA
Found at i:41235987 original size:48 final size:49
Alignment explanation
Indices: 41235919--41236135 Score: 289
Period size: 48 Copynumber: 4.5 Consensus size: 49
41235909 TTTTTGTATG
*
41235919 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
* **
41235968 AATATTAT-AGTTTGTATGAATA-T-TGCATTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
* * * *
41236014 AATTTTGTAATTTTATATGAATATTAT-ATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
** *
41236062 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
* *
41236111 AATTTTGTAATTTTGTATGAATATT
1 AATATTATAATTTTGTATGAATATT
41236136 GTAATGTGGG
Statistics
Matches: 147, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 27 0.18
47 13 0.09
48 55 0.37
49 52 0.35
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (49 bp):
AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
Found at i:41236034 original size:27 final size:26
Alignment explanation
Indices: 41235997--41236140 Score: 162
Period size: 27 Copynumber: 5.8 Consensus size: 26
41235987 ATATTGCATT
*
41235997 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
41236024 TTTTATATGAATA-T-T-ATATTT--
1 TTTTGTATGAATATTGTAATATTTAA
41236045 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
41236072 TTTTGTATGAATATTG-CA-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
*
41236094 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
41236121 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
41236141 GTGGGGATAT
Statistics
Matches: 100, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
21 12 0.12
22 17 0.17
23 3 0.03
24 12 0.12
25 6 0.06
26 2 0.02
27 48 0.48
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTTAA
Found at i:41236132 original size:97 final size:95
Alignment explanation
Indices: 41235923--41236135 Score: 365
Period size: 97 Copynumber: 2.2 Consensus size: 95
41235913 TGTATGAATA
41235923 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTGTATGAA
41235988 TATTGCATTTTTTGTATGAATATTGTAATT
66 TATTGCATTTTTTGTATGAATATTGTAATT
* * *
41236018 TTGTAATTTTATATGAATATTAT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTAT-AGTTTGTATGA
41236082 ATATTGCAATTTTTTTGTATGAATATTGTAATT
65 ATATTGC-A-TTTTTTGTATGAATATTGTAATT
41236115 TTGTAATTTTGTATGAATATT
1 TTGTAATTTTGTATGAATATT
41236136 GTAATGTGGG
Statistics
Matches: 111, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
94 28 0.25
95 39 0.35
96 1 0.01
97 43 0.39
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (95 bp):
TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTGTATGAA
TATTGCATTTTTTGTATGAATATTGTAATT
Found at i:41236381 original size:38 final size:38
Alignment explanation
Indices: 41236336--41236409 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
41236326 CATATAAAGT
41236336 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
41236374 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTT
41236410 GGGTTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:41236561 original size:15 final size:15
Alignment explanation
Indices: 41236520--41236561 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
41236510 GTTAACTCAT
*
41236520 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
41236535 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
41236551 TTAAATTTTAT
1 TTAAATTTTAT
41236562 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:41238199 original size:6 final size:6
Alignment explanation
Indices: 41238188--41238212 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41238178 GCATCATGCA
41238188 CCAGAG CCAGAG CCAGAG CCAGAG C
1 CCAGAG CCAGAG CCAGAG CCAGAG C
41238213 GAGTGGCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:41241573 original size:22 final size:22
Alignment explanation
Indices: 41241545--41241600 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
41241535 AAATACCTAA
*
41241545 TTCTTTTCTTTTGCTTCCTTCC
1 TTCTTTTCTTCTGCTTCCTTCC
41241567 TTCTTTTCTTCTGCTTCCTTCC
1 TTCTTTTCTTCTGCTTCCTTCC
41241589 TTCTTTTCTTCT
1 TTCTTTTCTTCT
41241601 TTCTTCTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.00, C:0.32, G:0.04, T:0.64
Consensus pattern (22 bp):
TTCTTTTCTTCTGCTTCCTTCC
Found at i:41241585 original size:18 final size:17
Alignment explanation
Indices: 41241550--41241587 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
41241540 CCTAATTCTT
41241550 TTCTTTTGCTTCCTTCC
1 TTCTTTTGCTTCCTTCC
41241567 TTCTTTT-CTTCTGCTTCC
1 TTCTTTTGCTTC--CTTCC
41241585 TTC
1 TTC
41241588 CTTCTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.00, C:0.34, G:0.05, T:0.61
Consensus pattern (17 bp):
TTCTTTTGCTTCCTTCC
Found at i:41241691 original size:27 final size:27
Alignment explanation
Indices: 41241661--41241761 Score: 157
Period size: 27 Copynumber: 3.7 Consensus size: 27
41241651 AGAAAAATCA
* *
41241661 CATTGGCGCTTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
* *
41241688 CATTTGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
41241715 CATTGGCGCCTCCCAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
41241742 CATTGGCGCCTTCCAGATAG
1 CATTGGCGCCTCCCAGATAG
41241762 ACGCCAATAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.23, C:0.37, G:0.21, T:0.20
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:41246202 original size:808 final size:807
Alignment explanation
Indices: 41241961--41247333 Score: 9509
Period size: 807 Copynumber: 6.7 Consensus size: 807
41241951 TAAAAAACCC
41241961 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* *
41242026 ACGTGTTAGGTTTGAAGCAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGGCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* *
41242091 TAGGGTTGTTATGTAACCTACAATTTAATCTGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
* *
41242156 TATGCATCTATTAGCCGAAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
41242221 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
* *
41242286 ATGAATCAAATAAATATTGTTTAATAAAAATAAACCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
*
41242351 TGTAAACAAAAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
41242416 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
41242481 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATTCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
41242546 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
41242611 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
* *
41242676 TGCTTACTAATATTCGGAAAAATATTTTATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
41242741 TAGGTCCTTTCGGAATCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
41242768 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
*
41242833 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGGCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
*
41242898 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGAATCTAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
* *
41242963 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTTAGCTAATTCTGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
41243028 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
41243093 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
41243158 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
* * *
41243223 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAATTGATGAGGCTCATTCGCTTCTTTGCCTTG
456 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
41243288 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGAACCAAATATGCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
41243353 ATGTAAATTATCCTAATAT---G---A-ATG---G-AATAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
41243407 TGCAACAATTATAACATAATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCA
651 TGCAACAATTATAAC---ATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCA
41243472 TCATGCTTAATAATATTCGG-AAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCA
713 TCATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCA
41243536 AATTAGGTCCTTTCGGAATCCTTTACTTAG
778 AATTAGGTCCTTTCGGAATCCTTTACTTAG
41243566 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* *
41243631 ACGTGTTAGGTTTGAAGCAATTTAATCACACAAGTCTAAAAACTATGCAGATAACAGAGCCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
*
41243696 TAGGGTTGTTATGCAACCTACAATTTAATCTGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
* *
41243761 TATGCATCTATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGCTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
*
41243826 ATGAACAAAATACATACTTGGTTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
41243891 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
41243956 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
* *
41244021 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCATTG
456 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
41244086 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGACCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
* *
41244151 ATGTAAATTATCGTAATATGCAGACTAATATGAATGGAATAGATTTTAGCAAAATTTAACACAAT
586 ATGTAAATTATCCTAATATGCAGACT-ATATGAATGAAATAGATTTTAGCAAAATTTAACACAAT
41244216 TTGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATC
650 TTGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATC
*
41244281 ATCCTTAATAATATTCGG-AAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
715 ATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
41244345 TTAGGTCCTTTCGGAATCCTTTACTTAG
780 TTAGGTCCTTTCGGAATCCTTTACTTAG
*
41244373 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGGCGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* *
41244438 ACGTGTTAGGTTTGAAGCAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGGCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* * *
41244503 TAGGGTTGTTATGTAACCTACAATTTAATCTGGTTAGGATCTAAATTAAGCATGCGCATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
41244568 TATGCATCTATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
* * *
41244633 ATGAACAAAATACATACTTGGTTTTAGTGGAAAACATGATCGATTGAGGCGCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
* *
41244698 ATGAATCAAATAAATATTGTTTAATAAAAATAATCCTAGCTTAAATAAATTTAAGTTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
*
41244763 TGTAAACAATAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
* * *
41244828 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGACTCATTCGCTTCATTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
41244893 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTTAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
41244958 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
41245023 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
41245088 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
*
41245153 TAGGTCCTTTCGGAGTCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
*
41245180 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCATGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
41245245 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* * *
41245310 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGAATCTAAATCAAGCATGCGCATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
41245375 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCATCTAATTCAGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
41245440 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
*
41245505 ATGAATCAAATAAATATTGTTTAACCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
*
41245570 TGTAAACAAGAACAAAGAACACATAGTAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
*
41245635 ACCAAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
41245700 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCAGACCAAATATGCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
*
41245765 ATGTAAATTATCCTAATATGCAGACTAATATGAATAAAATAGATTTTAGCAAAATTTAACACAAT
586 ATGTAAATTATCCTAATATGCAGACT-ATATGAATGAAATAGATTTTAGCAAAATTTAACACAAT
* *
41245830 TTGCAACAATTATAACATAAATAAACTAAGACAATTATAATAATTAAACTTAATTTATTATCATC
650 TTGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATC
41245895 ATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
715 ATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
41245960 TTAGGTCCTTTCGGAATCCTTTACTTAG
780 TTAGGTCCTTTCGGAATCCTTTACTTAG
*
41245988 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGGCGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* * * *
41246053 ACGTGTTAGGTTTGAAACAATGTAATCACACAAATCAAAAAACTATACAGATAACAGAGCCTGAT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
41246118 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
41246183 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGCTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
* *
41246248 ATGAACAAAATGCATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCGCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
41246313 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
41246378 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
* *
41246443 ACCCAATTCAGAGTGGCTATC-CCCAAGACTCTAACTGATAAGGCTCATTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
* * *
41246507 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCAGACCAAATATGAAAACTAGATTCAATGATCCGTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
41246572 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
41246637 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
**
41246702 TGCTTAATAATATTCAAAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
41246767 TAGGTCCTTTCGGAATCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
* * *
41246794 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCATGTTAGGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
41246859 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCC-GAG
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTG-G
* * *
41246923 -TAGGGTTGTTATACAACCTACAATTTAATCGAGTTAGGATCTAAATTGAGCATGCACATTTCAA
130 TTAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAA
* * * *
41246987 TTATGCGTCCATTAGCCGTTGTCTGG-T--G--CAGT--TC-AATTCAGGTGCATTTCAATCACG
195 TTATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACG
** * * ** * * * *
41247044 TATGAATGAAATACAGACTTGATTTTAATCAAAAACATGATCGATTGAGACACAAAAATTACAAG
260 TATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAG
* * **
41247109 CATGAATCAAATAAATATTATTTAATCAAAATAATTATCCTAGCTGAAATAGTTTTAAGCTATCA
325 CATGAATCAAATAAATATTGTTTAATCAAAAT-A--ATCCTAGCTTAAATAAATTTAAGCTATCA
* * *
41247174 TTGTTGTAAACAAGAACAAAGAACACATATCAAACATCTTTAAATTAAACTAAAGAAAAGAAATA
387 TTGTTGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGA
* * * *
41247239 TTAAACCCAATTCAGAGTGGCTGTCACCCAAGACTCTGACGGATGAGGCTCCTTCACTTCTTTGC
452 TTAAACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGC
*
41247304 GTTGCTCC-TTTGCTGATGGTTCTCCAAGGT
517 GTTGCTCCTTTTGCTGATAGTTCTCCAAGGT
41247334 AGTTGACCAA
Statistics
Matches: 4396, Mismatches: 148, Indels: 51
0.96 0.03 0.01
Matches are distributed among these distances:
796 44 0.01
797 108 0.02
798 664 0.15
799 66 0.02
800 139 0.03
801 44 0.01
802 1 0.00
804 2 0.00
805 87 0.02
806 432 0.10
807 2113 0.48
808 651 0.15
809 1 0.00
810 44 0.01
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (807 bp):
TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
TAGGTCCTTTCGGAATCCTTTACTTAG
Found at i:41249905 original size:49 final size:47
Alignment explanation
Indices: 41249845--41250203 Score: 547
Period size: 47 Copynumber: 7.6 Consensus size: 47
41249835 GATAATTGTG
* *
41249845 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
41249892 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
41249939 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41249988 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41250037 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41250084 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
41250131 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41250178 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
41250204 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
47 197 0.68
49 93 0.32
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:41249913 original size:96 final size:94
Alignment explanation
Indices: 41249832--41250203 Score: 407
Period size: 96 Copynumber: 3.9 Consensus size: 94
41249822 TGAAGTATAT
41249832 TTGGATAATTG-TG-ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TTGGATAATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
41249895 TGAAAGTGTATATATGTGATAAGGCCG-AA
66 TGAAAGTGTATATATGTGATAAGG-CGTAA
**
41249924 -TGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TTGGATAAT-TGATGAATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41249988 ATGTGAAAGTGTATATATATGTGATAAGGCCTAA
63 ATGTGAAAGTG--TATATATGTGATAAGGCGTAA
* * * * *
41250022 TAGCCGAT--GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAA
1 TTG--GATAATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
41250085 TGTGAAAGTGTATATATGTGATGAGGCCTAA
64 TGTGAAAGTGTATATATGTGATAAGGCGTAA
*** * * * * * * * * *
41250116 -TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 TTGGATAAT-TGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
41250180 GTGAAAGTGTATAAATGTGATAAG
65 GTGAAAGTGTATATATGTGATAAG
41250204 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 25, Indels: 26
0.83 0.09 0.09
Matches are distributed among these distances:
91 7 0.03
92 2 0.01
93 3 0.01
94 94 0.39
95 2 0.01
96 99 0.41
97 3 0.01
98 29 0.12
99 1 0.00
101 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TTGGATAATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
TGAAAGTGTATATATGTGATAAGGCGTAA
Found at i:41260364 original size:12 final size:12
Alignment explanation
Indices: 41260347--41260376 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
41260337 ATGTTATTTT
41260347 AAAAAATTGAAA
1 AAAAAATTGAAA
41260359 AAAAAATTGAAA
1 AAAAAATTGAAA
41260371 AAAAAA
1 AAAAAA
41260377 GATCCACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (12 bp):
AAAAAATTGAAA
Found at i:41262169 original size:24 final size:24
Alignment explanation
Indices: 41262154--41262205 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
41262144 AATCAAAGTC
41262154 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
41262178 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
41262202 AAAT
1 AAAT
41262206 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:41274058 original size:24 final size:24
Alignment explanation
Indices: 41274031--41274087 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
41274021 AAGCCTAATT
41274031 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* *
41274055 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATG
*
41274079 CTCATAAAT
1 CTAATAAAT
41274088 ACTAAATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:41274093 original size:24 final size:24
Alignment explanation
Indices: 41274043--41274094 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
41274033 AATCAAAGTC
* **
41274043 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
41274067 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
41274091 AAAT
1 AAAT
41274095 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:41274820 original size:18 final size:20
Alignment explanation
Indices: 41274771--41274820 Score: 50
Period size: 23 Copynumber: 2.5 Consensus size: 20
41274761 TATGTCAACC
*
41274771 TAAATAAATATTATATCAAAT
1 TAAATAAATATGATAT-AAAT
41274792 TATAATGAAATATGATAT-AA-
1 TA-AAT-AAATATGATATAAAT
41274812 TAAATAAAT
1 TAAATAAAT
41274821 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.15
19 3 0.12
20 2 0.08
21 4 0.15
22 3 0.12
23 10 0.38
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
TAAATAAATATGATATAAAT
Found at i:41277939 original size:40 final size:40
Alignment explanation
Indices: 41277749--41277932 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
41277739 TTGAATGATG
* * * *
41277749 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
41277789 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41277829 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGA-TTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41277867 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41277908 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41277933 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 15 0.12
39 37 0.31
40 59 0.49
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41285376 original size:42 final size:42
Alignment explanation
Indices: 41285292--41285375 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
41285282 GTAGGGTAAA
* * * * *
41285292 TCCAACAACCCAAGTTTTTCTTCTCCTTTTTTAAATTCTTTT
1 TCCAACAACCCAAGATTATATTCTCCTTCTTCAAATTCTTTT
41285334 TCCAACAACCCAAGATTATATTCTCC-TCTTCAAATTCTTTT
1 TCCAACAACCCAAGATTATATTCTCCTTCTTCAAATTCTTTT
41285375 T
1 T
41285376 TGTAGGATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 14 0.38
42 23 0.62
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (42 bp):
TCCAACAACCCAAGATTATATTCTCCTTCTTCAAATTCTTTT
Found at i:41286922 original size:20 final size:19
Alignment explanation
Indices: 41286878--41286922 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
41286868 AAACTGTGAA
*
41286878 AAATTCAAAATTAAGGGGT
1 AAATTCAAAATTAAGGGCT
*
41286897 AGAATTGAAAATTAAGGAGCT
1 A-AATTCAAAATTAAGG-GCT
41286918 AAATT
1 AAATT
41286923 TAGCTTAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (19 bp):
AAATTCAAAATTAAGGGCT
Found at i:41290728 original size:27 final size:28
Alignment explanation
Indices: 41290644--41290741 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
41290634 CATGAGATTG
* * * *
41290644 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
41290673 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
41290701 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41290728 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
41290742 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41290752 original size:27 final size:27
Alignment explanation
Indices: 41290672--41290754 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
41290662 TAAATTGTAC
* *
41290672 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
41290700 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
41290727 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
41290754 A
1 A
41290755 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:41290755 original size:29 final size:27
Alignment explanation
Indices: 41290644--41290755 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
41290634 CATGAGATTG
** * *
41290644 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
41290673 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
41290701 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
41290728 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
41290756 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:41298891 original size:27 final size:28
Alignment explanation
Indices: 41298807--41298904 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
41298797 CATGAGATTG
* * * *
41298807 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
41298836 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
41298864 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41298891 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
41298905 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41298915 original size:27 final size:27
Alignment explanation
Indices: 41298835--41298917 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
41298825 TAAATTGTAC
* *
41298835 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
41298863 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
41298890 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
41298917 A
1 A
41298918 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:41298918 original size:29 final size:27
Alignment explanation
Indices: 41298807--41298918 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
41298797 CATGAGATTG
** * *
41298807 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
41298836 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
41298864 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
41298891 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
41298919 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:41301069 original size:17 final size:19
Alignment explanation
Indices: 41301038--41301076 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
41301028 GAAATATTTA
*
41301038 TTTTGATGTTTTTAT-TAT
1 TTTTGATGTTATTATATAT
41301056 TTTTGATG-TATTATATAT
1 TTTTGATGTTATTATATAT
41301074 TTT
1 TTT
41301077 CAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTTGATGTTATTATATAT
Found at i:41310631 original size:21 final size:21
Alignment explanation
Indices: 41310607--41310646 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
41310597 TTGTGGCTGC
41310607 ATCTGA-TTCTGGTGTGGATTT
1 ATCTGACTT-TGGTGTGGATTT
*
41310628 ATCTGACTTTGTTGTGGAT
1 ATCTGACTTTGGTGTGGAT
41310647 GCATTTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.15, C:0.10, G:0.28, T:0.47
Consensus pattern (21 bp):
ATCTGACTTTGGTGTGGATTT
Found at i:41321075 original size:2 final size:2
Alignment explanation
Indices: 41321068--41321100 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
41321058 ATCCCATCCT
41321068 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
41321101 ATGTATGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:41322742 original size:13 final size:13
Alignment explanation
Indices: 41322724--41322748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41322714 TTCACAATAA
41322724 TTTAATTTTTTAT
1 TTTAATTTTTTAT
41322737 TTTAATTTTTTA
1 TTTAATTTTTTA
41322749 AATTTTAGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTAATTTTTTAT
Found at i:41323239 original size:11 final size:10
Alignment explanation
Indices: 41323208--41323238 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
41323198 CTTTAGATCC
41323208 ATTTATTTTT
1 ATTTATTTTT
41323218 ATTTCATTTTT
1 ATTT-ATTTTT
41323229 ATTTATTTTT
1 ATTTATTTTT
41323239 TTCCCTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:41323258 original size:18 final size:19
Alignment explanation
Indices: 41323231--41323266 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41323221 TCATTTTTAT
41323231 TTATT-TTTTTCCCTTTCC
1 TTATTCTTTTTCCCTTTCC
41323249 TTATTCTTTTTCCCTTTC
1 TTATTCTTTTTCCCTTTC
41323267 TTTCTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTCTTTTTCCCTTTCC
Found at i:41324090 original size:15 final size:15
Alignment explanation
Indices: 41324066--41324101 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
41324056 AGAGAGAATG
41324066 GAAA-AAAGGAAAAA
1 GAAATAAAGGAAAAA
41324080 GAAATAAAGGAAAAA
1 GAAATAAAGGAAAAA
*
41324095 AAAATAA
1 GAAATAA
41324102 GGATAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (15 bp):
GAAATAAAGGAAAAA
Found at i:41334012 original size:12 final size:12
Alignment explanation
Indices: 41334007--41334046 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
41333997 ATAAATATAA
*
41334007 AAATAATAA-TG
1 AAATAAAAAATG
41334018 AAATAAAAAATG
1 AAATAAAAAATG
*
41334030 AAATAAAAAATA
1 AAATAAAAAATG
41334042 AAATA
1 AAATA
41334047 TGATTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (12 bp):
AAATAAAAAATG
Found at i:41339631 original size:17 final size:18
Alignment explanation
Indices: 41339589--41339633 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
41339579 TCTAAAAAAA
41339589 ATTTACCATTTCACATCTC
1 ATTT-CCATTTCACATCTC
*
41339608 ATTTCCATTTCACGTC-C
1 ATTTCCATTTCACATCTC
*
41339625 TTTTCCATT
1 ATTTCCATT
41339634 CTAATATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 4 0.17
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTCCATTTCACATCTC
Found at i:41345543 original size:14 final size:15
Alignment explanation
Indices: 41345524--41345552 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41345514 GCATAATCCG
41345524 TTCAATC-ATATGAA
1 TTCAATCAATATGAA
41345538 TTCAATCAATATGAA
1 TTCAATCAATATGAA
41345553 GCCACGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (15 bp):
TTCAATCAATATGAA
Found at i:41346817 original size:14 final size:16
Alignment explanation
Indices: 41346785--41346823 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
41346775 TAAATAATTA
41346785 TATTATTTATCATATAT
1 TATTATTTA-CATATAT
41346802 TATTATTTA-ATA-AT
1 TATTATTTACATATAT
41346816 TATTATTT
1 TATTATTT
41346824 TGGTTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
17 9 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTTACATATAT
Found at i:41347238 original size:10 final size:10
Alignment explanation
Indices: 41347223--41347293 Score: 57
Period size: 10 Copynumber: 7.8 Consensus size: 10
41347213 TAAAAAATTC
41347223 TAATTTTTAA
1 TAATTTTTAA
41347233 TAATTTTTAA
1 TAATTTTTAA
*
41347243 T--TTTTTTA
1 TAATTTTTAA
*
41347251 T-ATTTTTAT
1 TAATTTTTAA
**
41347260 TAAAATTTAA
1 TAATTTTTAA
41347270 TAATTTTT--
1 TAATTTTTAA
41347278 T-ATTTTT-A
1 TAATTTTTAA
41347286 TAATTTTT
1 TAATTTTT
41347294 TCTAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
7 6 0.12
8 9 0.18
9 12 0.24
10 22 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:41347255 original size:27 final size:27
Alignment explanation
Indices: 41347225--41347293 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
41347215 AAAAATTCTA
*
41347225 ATTTTTAATAATTTTTAAT-TTTTTTAT
1 ATTTTTAATAATTTTTAATAATTTTT-T
* **
41347252 ATTTTTATTAAAATTTAATAATTTTTT
1 ATTTTTAATAATTTTTAATAATTTTTT
41347279 ATTTTT-ATAATTTTT
1 ATTTTTAATAATTTTT
41347294 TCTAATATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 23 0.68
28 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
ATTTTTAATAATTTTTAATAATTTTTT
Found at i:41347290 original size:46 final size:46
Alignment explanation
Indices: 41347199--41347294 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
41347189 TTTTACAAAA
*
41347199 TTTTATGATTTTTATAAAAAATTCTAATTTTTAATAATTTTTAATTT
1 TTTTATGATTTTTATAAAAAATTATAATTTTT-ATAATTTTTAATTT
* * *
41347246 TTTTAT-ATTTTTATTAAAATTTAATAATTTTT-TATTTTTATAATTT
1 TTTTATGATTTTTATAAAAAATT-ATAATTTTTATAATTTT-TAATTT
41347292 TTT
1 TTT
41347295 CTAATATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
45 6 0.14
46 23 0.53
47 14 0.33
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (46 bp):
TTTTATGATTTTTATAAAAAATTATAATTTTTATAATTTTTAATTT
Found at i:41350385 original size:17 final size:16
Alignment explanation
Indices: 41350351--41350380 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
41350341 TCAGTCGTTG
41350351 AAATGAAAAAAAATGC
1 AAATGAAAAAAAATGC
41350367 AAAT-AAAAAAAATG
1 AAATGAAAAAAAATG
41350381 TGCAAGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (16 bp):
AAATGAAAAAAAATGC
Found at i:41357125 original size:12 final size:13
Alignment explanation
Indices: 41357101--41357129 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
41357091 GGGCTATAAC
41357101 TATTGCATTTATT
1 TATTGCATTTATT
41357114 TATTGC-TTTATT
1 TATTGCATTTATT
41357126 TATT
1 TATT
41357130 CTTGTAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Done.